1 Data (\(n=377\), \(p=59\))

2 Variables

PCA

  • near distance: the variables “MAYBE” are colinearity.
  • based on the data.
  • Unless the variable “LongestfollowupmonthforOSampCSS”, “timemonth_DF”, and “timemonth_BF”, others are collected at (0,0).

Unless that three variable on the right side, we focus on the center of the plot. We still have a cluster, but we also have “Followupyear”, “Followupyear_DF”, and “Followupyear_BF”

Proportion of Variance

  • explanation of variation
  • PC1 have 0.81 for Proportion of Variance, it means 81% of explanation for all of whole data.
summary(pcaDf)
## Importance of components:
##                            PC1      PC2      PC3      PC4     PC5    PC6
## Standard deviation     50.8443 17.05397 12.29655 10.09849 4.29395 2.8698
## Proportion of Variance  0.8159  0.09179  0.04772  0.03219 0.00582 0.0026
## Cumulative Proportion   0.8159  0.90768  0.95540  0.98759 0.99341 0.9960
##                            PC7     PC8    PC9    PC10    PC11   PC12    PC13
## Standard deviation     1.52723 1.22917 1.1299 1.02114 0.84355 0.7980 0.74617
## Proportion of Variance 0.00074 0.00048 0.0004 0.00033 0.00022 0.0002 0.00018
## Cumulative Proportion  0.99674 0.99722 0.9976 0.99795 0.99818 0.9984 0.99855
##                           PC14    PC15    PC16   PC17    PC18    PC19    PC20
## Standard deviation     0.69245 0.63908 0.60085 0.5648 0.53040 0.51533 0.49719
## Proportion of Variance 0.00015 0.00013 0.00011 0.0001 0.00009 0.00008 0.00008
## Cumulative Proportion  0.99870 0.99883 0.99895 0.9990 0.99914 0.99922 0.99930
##                           PC21    PC22    PC23    PC24    PC25    PC26    PC27
## Standard deviation     0.47608 0.46959 0.43468 0.41477 0.37251 0.36020 0.34378
## Proportion of Variance 0.00007 0.00007 0.00006 0.00005 0.00004 0.00004 0.00004
## Cumulative Proportion  0.99937 0.99944 0.99950 0.99955 0.99960 0.99964 0.99967
##                           PC28    PC29    PC30    PC31    PC32    PC33    PC34
## Standard deviation     0.32345 0.31289 0.28903 0.28539 0.27776 0.27107 0.24957
## Proportion of Variance 0.00003 0.00003 0.00003 0.00003 0.00002 0.00002 0.00002
## Cumulative Proportion  0.99971 0.99974 0.99976 0.99979 0.99982 0.99984 0.99986
##                           PC35    PC36    PC37    PC38    PC39    PC40    PC41
## Standard deviation     0.23848 0.23742 0.22949 0.22338 0.21473 0.20088 0.17529
## Proportion of Variance 0.00002 0.00002 0.00002 0.00002 0.00001 0.00001 0.00001
## Cumulative Proportion  0.99988 0.99989 0.99991 0.99993 0.99994 0.99995 0.99996
##                           PC42    PC43    PC44    PC45    PC46    PC47    PC48
## Standard deviation     0.17071 0.16533 0.14509 0.14051 0.09498 0.07782 0.05818
## Proportion of Variance 0.00001 0.00001 0.00001 0.00001 0.00000 0.00000 0.00000
## Cumulative Proportion  0.99997 0.99998 0.99999 0.99999 1.00000 1.00000 1.00000
##                           PC49    PC50     PC51     PC52     PC53      PC54
## Standard deviation     0.03406 0.02217 0.003294 0.002556 0.001908 4.935e-15
## Proportion of Variance 0.00000 0.00000 0.000000 0.000000 0.000000 0.000e+00
## Cumulative Proportion  1.00000 1.00000 1.000000 1.000000 1.000000 1.000e+00
##                             PC55      PC56      PC57      PC58
## Standard deviation     4.935e-15 4.935e-15 4.935e-15 4.935e-15
## Proportion of Variance 0.000e+00 0.000e+00 0.000e+00 0.000e+00
## Cumulative Proportion  1.000e+00 1.000e+00 1.000e+00 1.000e+00

Correlation